Analysis of interatomic Contacts of Structural Units in PDB entry:
8D4V

Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
This page provides analyses of contacts formed by:

chains
helices
sheets
residues

For analysis of ligand-protein contacts, use:

LPC software

3D structure can be seen in additional window with STING software for 8D4V entry

There are 4 chains in PDB entry 8D4V (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	ILE 16	ARG 238
C	ILE 16	ARG 238
B	THR 157	VAL 253
D	SER 156	VAL 253

There are 10 helices in PDB entry 8D4V. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	AA1	A	57	61	Right-handed 310
Helix 2	AA2	A	164	169	Right-handed alpha
Helix 3	AA3	A	229	238	Right-handed alpha
Helix 4	AA4	C	57	61	Right-handed 310
Helix 5	AA5	C	163	169	Right-handed alpha
Helix 6	AA6	C	229	238	Right-handed alpha
Helix 7	AA7	B	187	203	Right-handed alpha
Helix 8	AA8	B	205	212	Right-handed alpha
Helix 9	AA9	D	187	203	Right-handed alpha
Helix 10	AB1	D	205	212	Right-handed alpha

There are 8 sheets in PDB entry 8D4V. Click on sheet of interest to get list of strands forming it: AA1, AA2, AA3, AA4, AA5, AA6, AA7, AA8,

There are 7 strands in AA1 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	20	21	first strand
Strand 2	A	155	160	anti-parallel
Strand 3	A	136	141	anti-parallel
Strand 4	A	199	202	anti-parallel
Strand 5	A	205	213	anti-parallel
Strand 6	A	221	225	anti-parallel
Strand 7	A	179	182	anti-parallel

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There are 6 strands in AA2 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	20	21	first strand
Strand 2	A	155	160	anti-parallel
Strand 3	A	136	141	anti-parallel
Strand 4	A	199	202	anti-parallel
Strand 5	A	205	213	anti-parallel
Strand 6	B	170	171	anti-parallel

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There are 12 strands in AA3 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	226	230	first strand
Strand 2	B	216	221	anti-parallel
Strand 3	B	246	253	anti-parallel
Strand 4	B	158	166	parallel
Strand 5	B	174	179	anti-parallel
Strand 6	A	41	50	anti-parallel
Strand 7	A	53	56	anti-parallel
Strand 8	A	105	109	anti-parallel
Strand 9	A	82	91	anti-parallel
Strand 10	A	64	69	anti-parallel
Strand 11	A	30	36	anti-parallel
Strand 12	A	41	50	anti-parallel

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There are 7 strands in AA4 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	20	21	first strand
Strand 2	C	155	160	anti-parallel
Strand 3	C	136	141	anti-parallel
Strand 4	C	199	202	anti-parallel
Strand 5	C	205	213	anti-parallel
Strand 6	C	221	225	anti-parallel
Strand 7	C	179	182	anti-parallel

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There are 6 strands in AA5 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	20	21	first strand
Strand 2	C	155	160	anti-parallel
Strand 3	C	136	141	anti-parallel
Strand 4	C	199	202	anti-parallel
Strand 5	C	205	213	anti-parallel
Strand 6	D	170	171	anti-parallel

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There are 12 strands in AA6 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	226	230	first strand
Strand 2	D	216	221	anti-parallel
Strand 3	D	246	253	anti-parallel
Strand 4	D	157	166	parallel
Strand 5	D	174	180	anti-parallel
Strand 6	C	41	50	anti-parallel
Strand 7	C	53	56	anti-parallel
Strand 8	C	105	109	anti-parallel
Strand 9	C	82	91	anti-parallel
Strand 10	C	64	69	anti-parallel
Strand 11	C	30	36	anti-parallel
Strand 12	C	41	50	anti-parallel

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There are 2 strands in AA7 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	184	186	first strand
Strand 2	B	240	242	anti-parallel

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There are 2 strands in AA8 sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	184	186	first strand
Strand 2	D	240	242	anti-parallel

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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

Analysis of interatomic Contacts of Structural Units in PDB entry: 8D4V

Analysis of interatomic Contacts of Structural Units in PDB entry:
8D4V